Question

How To Extract Contig Details From Fastq Files

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11.9 years ago

remanisuja ▴ 30

How to get the contig details from FASTQ files?

fastq contigs • 3.6k views

ADD COMMENT • link updated 11.9 years ago by Jorge Amigo 14k • written 11.9 years ago by remanisuja ▴ 30

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You should provide more detailed info.~~

ADD REPLY • link 11.9 years ago by GAO Yang ▴ 250

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I have the transcriptome sequence data in FASTQ file. How can I submit the EST to SRA of NCBI?

ADD REPLY • link 11.9 years ago by remanisuja ▴ 30

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What kind of information you want to extract?

ADD REPLY • link 11.9 years ago by yatung ▴ 200

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your post is still not specific enough - has been moved to the FixMe category. Please edit the main post and describe the problem that you are trying to solve.

ADD REPLY • link 11.9 years ago by Istvan Albert 100k

score 1 · Answer 1 · 2012-05-29

the question is not very clear, but I'll just give it a go.

fastq is a file format only for unmapped reads. if you need contig details then you would have to map those reads first. unless you have fastq files with reads coming only from a particular contig, in which case you would be the only one knowing with contig they've been sequenced from, and I guess that would be the information you need.

if your intention is to submit RNAseq data to SRA, there's a SEQanswers' thread that may be of your interest.